lablels

.env

@@ -1,29 +1,20 @@
-# docker-compose environment file
-#
-# When you set the same environment variable in multiple files,
-# here’s the priority used by Compose to choose which value to use:
-#
-#  1. Compose file
-#  2. Shell environment variables
-#  3. Environment file
-#  4. Dockerfile
-#  5. Variable is not defined
-
 #
 # Nginx configuration
 #
-NGINX_DEFAULT_CONF=./config/nginx_ohif.conf
+NGINX_DEFAULT_CONF=./config/ohif/nginx/default.conf
+NGINX_OHIF_CONF=./config/ohif/nginx/ohif.conf
 
 #
 # OHIF Viewer
 #
-VIEWER_CONFIG=./config/ohif.js
+OHIF_CONFIG=./config/ohif/ohif.js
+OHIF_LOGO=./config/ohif/logo.png
 
 #
 # Orthanc core with plugins
 #
-ORTHANC_CONFIG=./config/orthanc.json
-ORTHANC_OHIF=./config/orthanc_ohif.js
+ORTHANC_CONFIG=./config/orthanc
+ORTHANC_OHIF=./config/ohif/ohif.js
 ORTHANC_DB_MNT=./volumes/orthanc_db
 ORTHANC_LOG=./volumes/orthanc_logs
 
@@ -32,11 +23,24 @@ ORTHANC_LOG=./volumes/orthanc_logs
 #
 POSTGRES_DATA_MNT=./volumes/pg_data
 PGDATA=/var/lib/postgresql/data
+PGPASSWORD=secret
 
 POSTGRES_DB=orthanc
 POSTGRES_PORT=5432
 POSTGRES_USER=postgres
 POSTGRES_PASSWORD=password
+POSTGRES_HOST=postgres
 
 TZ="Asia/Dhaka"
 PGTZ="Asia/Dhaka"
+
+PGADMIN_MAIL=admin@blackfish.dev
+PGADMIN_PASS=secret
+PGADMIN_SERVER=False
+PGADMIN_MASTER_PASS=False
+PGADMIN_PORT=5050
+
+ORTHANC_AET=BLACKFISH
+ORTHANC_USERNAME=blackfish
+ORTHANC_PASSWORD=letmein
+ORTHANC_TOOLS_MNT=./volumes/orthanc_tools

config/meddream/license

@@ -0,0 +1 @@
+1

config/nginx_ohif.conf

@@ -1,28 +0,0 @@
-server {
-  listen 80;
-  # set client body size to 500M, this is to allow uploading of DICOMs, throws '413 request entity too large nginx' error otherwise #
-  client_max_body_size 500M;
-  location / {
-    root /usr/share/nginx/html;
-    index index.html index.htm;
-    try_files $uri $uri/ /index.html;
-  }
-
-  error_page 500 502 503 504 /50x.html;
-
-  location = /50x.html {
-    root /usr/share/nginx/html;
-  }
-
-  # https://book.orthanc-server.com/faq/nginx.html#nginx
-  location /orthanc/ {
-    proxy_pass http://orthanc:8042;
-    proxy_set_header HOST $host;
-    proxy_set_header X-Real-IP $remote_addr;
-    rewrite /orthanc(.*) $1 break;
-    add_header 'Access-Control-Allow-Credentials' 'true';
-    add_header 'Access-Control-Allow-Headers' 'DNT,X-CustomHeader,Keep-Alive,User-Agent,X-Requested-With,If-Modified-Since,Cache-Control,Content-Type';
-    add_header 'Access-Control-Allow-Methods' 'GET, POST, OPTIONS';
-    add_header 'Access-Control-Allow-Origin' '*';    
-  }
-}

config/ohif.js

@@ -19,6 +19,14 @@ window.config = {
       },
     ],
   },
+
+  studyPrefetcher: {
+    enabled: true,
+    displaySetCount: 2,
+    maxNumPrefetchRequests: 8,
+    order: 'closest',
+  },
+
   whiteLabeling: {
     /* Used to replace the default Logo */
     createLogoComponentFn: function (React) {

config/ohif/nginx/default.conf

@@ -0,0 +1,17 @@
+server {
+    listen [::]:80 default_server;
+    listen 80;
+
+    proxy_intercept_errors off;
+    gzip on;
+    gzip_types text/css application/javascript application/json image/svg+xml;
+    gzip_comp_level 9;
+    etag on;
+
+    charset     utf-8;
+
+    # max upload size
+	client_max_body_size 250M;
+	
+	include /etc/nginx/enabled-sites/*.conf;
+}

config/ohif/nginx/ohif.conf

@@ -0,0 +1,42 @@
+location / {
+	root /usr/share/nginx/html;
+	index index.html index.htm;
+	try_files $uri $uri/ /index.html;
+
+	proxy_set_header Host $host;
+	proxy_set_header X-Real-IP $remote_addr;
+	proxy_set_header X-Forwarded-For $proxy_add_x_forwarded_for;
+	proxy_set_header X-Forwarded-Proto $http_x_forwarded_proto;
+
+	add_header Cross-Origin-Opener-Policy same-origin;
+	add_header Cross-Origin-Embedder-Policy require-corp;
+	add_header Cross-Origin-Resource-Policy same-origin;
+	add_header Cache-Control "no-store, no-cache, must-revalidate";
+}
+
+error_page 500 502 503 504 /50x.html;
+
+location = /50x.html {
+	root /usr/share/nginx/html;
+}
+
+# https://book.orthanc-server.com/faq/nginx.html#nginx
+location /orthanc/ {
+	proxy_http_version 1.1;
+	proxy_set_header Host               $host;
+	proxy_set_header X-Real-IP          $remote_addr;
+	proxy_set_header X-Forwarded-For    $proxy_add_x_forwarded_for;
+	proxy_set_header X-Forwarded-Proto  $scheme;
+
+	expires           0;
+	add_header        Cache-Control private;
+
+	proxy_pass        http://orthanc:8042/;
+
+	rewrite /orthanc(.*) $1 break;
+	
+	add_header 'Access-Control-Allow-Credentials' 'true';
+	add_header 'Access-Control-Allow-Headers' 'DNT,X-CustomHeader,Keep-Alive,User-Agent,X-Requested-With,If-Modified-Since,Cache-Control,Content-Type';
+	add_header 'Access-Control-Allow-Methods' 'GET, POST, OPTIONS';
+	add_header 'Access-Control-Allow-Origin' '*';    
+}

config/ohif/ohif.js

@@ -0,0 +1,237 @@
+window.config = {
+  extensions: [],
+  modes: [],
+  customizationService: {
+    // Shows a custom route -access via http://localhost:3000/custom
+    // helloPage: '@ohif/extension-default.customizationModule.helloPage',
+  },
+
+  showStudyList: false,
+  studyListFunctionsEnabled: false,
+  filterQueryParam: false,  
+  investigationalUseDialog: {
+    option: "never",
+  },
+
+  whiteLabeling: {
+    /* Used to replace the default Logo */
+    createLogoComponentFn: function (React) {
+      return React.createElement("a", {
+        target: "_self",
+        rel: "noopener noreferrer",
+        className: "header-brand",
+        href: "/",
+        style: {
+          display: "block",
+          background: "url(logo.png)",
+          backgroundSize: "contain",
+          backgroundRepeat: "no-repeat",
+          width: "200px",
+        },
+      });
+    },
+  },
+
+  customizationService: {
+    cornerstoneOverlayTopLeft: {
+      id: "cornerstoneOverlayTopLeft",
+      items: [
+        {
+          id: "WindowLevel",
+          customizationType: "ohif.overlayItem.windowLevel",
+        },
+        {
+          id: "PatientName",
+          customizationType: "ohif.overlayItem",
+          label: "Pt:",
+          color: "white",
+          condition: ({ instance }) =>
+            instance && instance.PatientName && instance.PatientName.Alphabetic,
+          contentF: ({ instance, formatters: { formatPN } }) => {
+            if (
+              instance &&
+              instance.PatientName &&
+              instance.PatientName.Alphabetic
+            ) {
+              return (
+                formatPN(instance.PatientName.Alphabetic) +
+                " " +
+                (instance.PatientSex ? "(" + instance.PatientSex + ")" : "")
+              );
+            } else {
+              return "N/A";
+            }
+          },
+        },
+        {
+          id: "PatientAge",
+          customizationType: "ohif.overlayItem",
+          label: "Age:",
+          color: "white",
+          title: "Patient's Age",
+          condition: ({ instance }) => instance && instance.PatientAge,
+          contentF: ({ instance }) => instance.PatientAge,
+        },
+        {
+          id: "ID",
+          customizationType: "ohif.overlayItem",
+          label: "ID:",
+          color: "white",
+          title: "Patient PID",
+          condition: ({ instance }) => instance && instance.PatientID,
+          contentF: ({ instance }) => instance.PatientID,
+        },
+      ],
+    },
+  },
+
+  // some windows systems have issues with more than 3 web workers
+  maxNumberOfWebWorkers: 3,
+  // below flag is for performance reasons, but it might not work for all servers
+  omitQuotationForMultipartRequest: true,
+  showWarningMessageForCrossOrigin: true,
+  showCPUFallbackMessage: true,
+  showLoadingIndicator: true,
+  strictZSpacingForVolumeViewport: true,
+  maxNumRequests: {
+    interaction: 100,
+    thumbnail: 75,
+    // Prefetch number is dependent on the http protocol. For http 2 or
+    // above, the number of requests can be go a lot higher.
+    prefetch: 25,
+  },
+
+  httpErrorHandler: (error) => {
+    // This is 429 when rejected from the public idc sandbox too often.
+    if (error.status) {
+      console.warn(error.status);
+    } else {
+      console.warn(error);
+    }
+  },
+  hotkeys: [
+    {
+      commandName: "incrementActiveViewport",
+      label: "Next Viewport",
+      keys: ["right"],
+    },
+    {
+      commandName: "decrementActiveViewport",
+      label: "Previous Viewport",
+      keys: ["left"],
+    },
+    { commandName: "rotateViewportCW", label: "Rotate Right", keys: ["r"] },
+    { commandName: "rotateViewportCCW", label: "Rotate Left", keys: ["l"] },
+    { commandName: "invertViewport", label: "Invert", keys: ["i"] },
+    {
+      commandName: "flipViewportHorizontal",
+      label: "Flip Horizontally",
+      keys: ["h"],
+    },
+    {
+      commandName: "flipViewportVertical",
+      label: "Flip Vertically",
+      keys: ["v"],
+    },
+    { commandName: "scaleUpViewport", label: "Zoom In", keys: ["+"] },
+    { commandName: "scaleDownViewport", label: "Zoom Out", keys: ["-"] },
+    { commandName: "fitViewportToWindow", label: "Zoom to Fit", keys: ["="] },
+    { commandName: "resetViewport", label: "Reset", keys: ["space"] },
+    { commandName: "nextImage", label: "Next Image", keys: ["down"] },
+    { commandName: "previousImage", label: "Previous Image", keys: ["up"] },
+    // {
+    //   commandName: 'previousViewportDisplaySet',
+    //   label: 'Previous Series',
+    //   keys: ['pagedown'],
+    // },
+    // {
+    //   commandName: 'nextViewportDisplaySet',
+    //   label: 'Next Series',
+    //   keys: ['pageup'],
+    // },
+    {
+      commandName: "setToolActive",
+      commandOptions: { toolName: "Zoom" },
+      label: "Zoom",
+      keys: ["z"],
+    },
+    // ~ Window level presets
+    {
+      commandName: "windowLevelPreset1",
+      label: "W/L Preset 1",
+      keys: ["1"],
+    },
+    {
+      commandName: "windowLevelPreset2",
+      label: "W/L Preset 2",
+      keys: ["2"],
+    },
+    {
+      commandName: "windowLevelPreset3",
+      label: "W/L Preset 3",
+      keys: ["3"],
+    },
+    {
+      commandName: "windowLevelPreset4",
+      label: "W/L Preset 4",
+      keys: ["4"],
+    },
+    {
+      commandName: "windowLevelPreset5",
+      label: "W/L Preset 5",
+      keys: ["5"],
+    },
+    {
+      commandName: "windowLevelPreset6",
+      label: "W/L Preset 6",
+      keys: ["6"],
+    },
+    {
+      commandName: "windowLevelPreset7",
+      label: "W/L Preset 7",
+      keys: ["7"],
+    },
+    {
+      commandName: "windowLevelPreset8",
+      label: "W/L Preset 8",
+      keys: ["8"],
+    },
+    {
+      commandName: "windowLevelPreset9",
+      label: "W/L Preset 9",
+      keys: ["9"],
+    },
+  ],
+
+  routerBasename: "/ohif/",
+
+  dataSources: [
+    {
+      friendlyName: "BlackFish DICOMweb",
+      namespace: "@ohif/extension-default.dataSourcesModule.dicomweb",
+      sourceName: "dicomweb",
+      configuration: {
+        name: "orthanc",
+
+        wadoUriRoot: "../dicom-web",
+        qidoRoot: "../dicom-web",
+        wadoRoot: "../dicom-web",
+
+        qidoSupportsIncludeField: false,
+        supportsReject: false,
+        imageRendering: "wadors",
+        thumbnailRendering: "wadors",
+        enableStudyLazyLoad: true,
+        supportsFuzzyMatching: false,
+        supportsWildcard: true,
+        staticWado: true,
+        singlepart: "bulkdata,pdf,video",
+        acceptHeader: [
+          "multipart/related; type=application/octet-stream; transfer-syntax=*",
+        ],
+      },
+    },
+  ],
+
+  defaultDataSourceName: "dicomweb",
+};

config/orthanc/dicom-web.json

@@ -0,0 +1,18 @@
+{
+  "DicomWeb": {
+    "Enable": true,
+    "Root": "/dicom-web/",
+    "PublicRoot": "/dicom-web/",
+    "EnableWado": true,
+    "WadoRoot": "/wado",
+    "Ssl": false,
+    "Servers": {
+      //"main": ["http://orthanc:8042/dicom-web/"]
+    },
+    "QidoCaseSensitive": true,
+    "MetadataWorkerThreadsCount": 10,
+    "EnableMetadataCache": true,
+    "StudiesMetadata": "Full",
+    "SeriesMetadata": "Full"
+  }
+}

config/orthanc/dictionary.json

@@ -0,0 +1,6 @@
+{
+  "Dictionary": {
+    "1971,0010": ["CS", "PBSender", 1, 1, "BlackFish"],
+    "1971,1001": ["LO", "DicomSenderID", 1, 1, "BlackFish"]
+  }
+}

config/orthanc/explorer.json

@@ -0,0 +1,76 @@
+{
+    "OrthancExplorer2": {
+        "CustomTitle": "BlackFish PACS",
+        "IsDefaultOrthancUI": true,
+        "Theme": "light",
+        "UiOptions": {
+            "EnableOpenInMedDreamViewer": false,
+            "EnableOpenInOhifViewer3": true,
+            "EnableOpenInVolView": true,
+            "EnableStudyList": true,
+            "EnableDownloadZip": true,
+            "EnableLinkToLegacyUi": false,
+            "ShowOrthancName": false,
+            "DateFormat": "dd/MM/yyyy",
+            "EnableDownloadDicomFile": true,
+            "EnableModification": true,
+            "DefaultShareDuration": 0,
+            "EnableApiViewMenu": true,
+            "EnableEditLabels": true,
+            "EnableViewerQuickButton": true,
+            "EnableReportQuickButton": false,
+            "StudyListSearchMode": "search-button",
+            "StudyListContentIfNoSearch": "empty",
+            "MaxStudiesDisplayed": 150,
+            "PageLoadSize": 50,
+            "MaxMyJobsHistorySize": 5,
+            "UploadReportTags": [
+                "PatientName",
+                "StudyDescription",
+                "PatientID",
+                "AccessionNumber",
+                "StudyDate"
+            ],
+            "UploadReportMaxTags": 2,
+            "PatientMainTags": [
+                "PatientID",
+                "PatientName",
+                "PatientBirthDate",
+                "PatientSex",
+                "OtherPatientIDs"
+            ],
+            "StudyMainTags": [
+                "StudyDate",
+                "StudyTime",
+                "StudyDescription",
+                "AccessionNumber",
+                "StudyID",
+                "StudyInstanceUID",
+                "RequestingPhysician",
+                "ReferringPhysicianName",
+                "Department",
+                "ReportingDoctor",
+                "InstitutionName"
+            ],
+            "SeriesMainTags": [
+                "SeriesDate",
+                "SeriesTime",
+                "SeriesDescription",
+                "SeriesNumber",
+                "BodyPartExamined",
+                "ProtocolName",
+                "SeriesInstanceUID"
+            ],
+            "StudyListColumns": [
+                "PatientBirthDate",
+                "PatientName",
+                "PatientID",
+                "StudyDescription",
+                "StudyDate",
+                "modalities",
+                "AccessionNumber",
+                "seriesAndInstancesCount"
+            ]
+        }
+    }
+}

config/orthanc/housekeeper.json

@@ -0,0 +1,25 @@
+{
+    "Housekeeper": {
+        "Enable": true,
+        "GlobalPropertyId": 1971,
+        "Force": false,
+        "ThrottleDelay": 15,
+        "Schedule": {
+            "Monday": ["3-6"],
+            "Tuesday": ["3-6"],
+            "Wednesday": ["3-6"],
+            "Thursday": ["3-6"],
+            "Friday": ["3-6"],
+            "Saturday": ["3-6"],
+            "Sunday": ["3-6"]
+        },
+        "Triggers": {
+            "StorageCompressionChange": true,
+            "MainDicomTagsChange": true,
+            "UnnecessaryDicomAsJsonFiles": true,
+            "IngestTranscodingChange": true,
+            "DicomWebCacheChange": true
+        },
+        "LimitMainDicomTagsReconstructLevel": "Study"
+    }
+}

config/orthanc/modalities.json

@@ -0,0 +1,5 @@
+{
+  "DicomModalities": {
+    // "sample" : [ "STORESCP", "127.0.0.1", 2000 ]
+  }
+}

config/orthanc/multitenant.json

@@ -0,0 +1,13 @@
+{
+  "MultitenantDicom" : {
+    "Servers" : [
+      {
+        "AET" : "BLKFSHIN",
+        "Port" : 4243,
+        "Labels" : [ "BLACKFISH_CHENNAI" ],
+        "LabelsConstraint" : "All",
+        "LabelsStoreLevels" : [ "Patient", "Study" ]
+      }
+    ]
+  }
+}

config/orthanc/ohif.json

@@ -0,0 +1,5 @@
+{
+  "OHIF": {
+    "UserConfiguration": "/usr/local/share/orthanc/ohif.js"
+  }
+}

config/orthanc/orthanc.json

@@ -1,7 +1,11 @@
 {
-  "Name": "PixelBridge",
+  "Name": "${ORTHANC_NAME:-BlackFish}",
   "StorageDirectory": "/var/lib/orthanc/db",
   "IndexDirectory": "/var/lib/orthanc/db",
+  "DicomServerEnabled": true,
+  "DicomAet": "${DICOM_AET:-BLACKFISH}",
+  "DicomCheckCalledAet": false,
+  "DicomPort": ${DICOM_PORT:-4242},
   "StorageCompression": true,
   "MaximumStorageSize": 0,
   "MaximumPatientCount": 0,
@@ -11,9 +15,6 @@
     "/usr/share/orthanc/plugins",
     "/usr/local/share/orthanc/plugins"
   ],
-  "OHIF": {
-    "UserConfiguration": "/usr/local/share/orthanc/ohif.js"
-  },
   "ExtraMainDicomTags": {
     "Instance": [
       "Rows",
@@ -74,45 +75,31 @@
     ]
   },
   "ConcurrentJobs": 8,
-  
   "HttpServerEnabled": true,
   "OrthancExplorerEnabled": true,
   "HttpPort": 8042,
   "HttpDescribeErrors": true,
   "HttpCompressionEnabled": true,
-  
   "WebDavEnabled": true,
   "WebDavDeleteAllowed": false,
   "WebDavUploadAllowed": true,
-  
-  "DicomServerEnabled": true,
-  "DicomAet": "BLACKFISH",
-  "DicomCheckCalledAet": false,
-  "DicomPort": 4242,
   "DefaultEncoding": "Utf8",
   "AcceptedTransferSyntaxes": [
     "1.2.840.10008.1.*"
   ],
-  "DeflatedTransferSyntaxAccepted"     : true,
-  "JpegTransferSyntaxAccepted"         : true,
-  "Jpeg2000TransferSyntaxAccepted"     : true,
-  "JpegLosslessTransferSyntaxAccepted" : true,
-  "JpipTransferSyntaxAccepted"         : true,
+  "DeflatedTransferSyntaxAccepted": true,
+  "JpegTransferSyntaxAccepted": true,
+  "Jpeg2000TransferSyntaxAccepted": true,
+  "JpegLosslessTransferSyntaxAccepted": true,
+  "JpipTransferSyntaxAccepted": true,
   "UnknownSopClassAccepted": false,
   "DicomScpTimeout": 30,
-  
   "RemoteAccessAllowed": true,
   "SslEnabled": false,
   "SslCertificate": "certificate.pem",
   "SslMinimumProtocolVersion": 4,
   "SslVerifyPeers": false,
   "SslTrustedClientCertificates": "trustedClientCertificates.pem",
-  
-  "AuthenticationEnabled": false,
-  "RegisteredUsers": {
-    "dicom": "letmein"
-  },
-  
   "DicomTlsEnabled": false,
   "DicomTlsRemoteCertificateRequired": true,
   "DicomAlwaysAllowEcho": true,
@@ -122,9 +109,6 @@
   "DicomAlwaysAllowGet": false,
   "DicomAlwaysAllowMove": false,
   "DicomCheckModalityHost": false,
-  "DicomModalities": {
-    // "sample" : [ "STORESCP", "127.0.0.1", 2000 ]
-  },
   "DicomModalitiesInDatabase": false,
   "DicomEchoChecksFind": false,
   "DicomScuTimeout": 10,
@@ -132,13 +116,11 @@
   "DicomThreadsCount": 4,
   "OrthancPeers": {},
   "OrthancPeersInDatabase": false,
-  
   "HttpProxy": "",
   "HttpVerbose": false,
   "HttpTimeout": 60,
   "HttpsVerifyPeers": false,
   "HttpsCACertificates": "/etc/ssl/certs/ca-certificates.crt",
-  
   "UserMetadata": {
     // "Sample" : 1024
   },
@@ -146,7 +128,6 @@
     // "sample" : 1024
     // "sample2" : [ 1025, "application/pdf" ]
   },
-  
   "StableAge": 60,
   "StrictAetComparison": false,
   "StoreMD5ForAttachments": true,
@@ -161,11 +142,6 @@
   "QueryRetrieveSize": 100,
   "CaseSensitivePN": false,
   "LoadPrivateDictionary": true,
-  "Dictionary" : {
-    "0011,1060" : [ "LO", "InnowaveUploaderID", 1, 1, "InowavePrivateGroup"],
-    "1971,0010" : [ "CS", "PBSender", 1, 1, "PixelBridge"],
-    "1971,1001" : [ "LO", "DicomSenderID", 1, 1, "PixelBridge"]
-  },
   "SynchronousCMove": true,
   "JobsHistorySize": 10,
   "SaveJobs": true,
@@ -175,7 +151,7 @@
   "MetricsEnabled": true,
   "ExecuteLuaEnabled": false,
   "HttpRequestTimeout": 30,
-  "DefaultPrivateCreator": "PixelBridge",
+  "DefaultPrivateCreator": "BlackFish",
   "StorageCommitmentReportsSize": 100,
   "TranscodeDicomProtocol": true,
   "BuiltinDecoderTranscoderOrder": "After",
@@ -194,87 +170,5 @@
   "Warnings": {
     "W001_TagsBeingReadFromStorage": true,
     "W002_InconsistentDicomTagsInDb": true
-  },
-  
-  "StoneWebViewer": {
-    /**
-     * Enables/disables the print button.
-     **/
-    "PrintEnabled": false,
-    /**
-     * Enables/disables the button to download a screenshot of the
-     * active viewport as a JPEG file.
-     **/
-    "DownloadAsJpegEnabled": false,
-    /**
-     * Enables/disables the button to download the display study.
-     * Only used if "OrthancApiRoot" is properly set.
-     **/
-    "DownloadStudyEnabled": false,
-    /**
-     * If option "DownloadDicomDir" is set to "true", the Stone Web
-     * viewer will create DICOMDIR media archives (as generated by the
-     * route "/studies/{id}/media" of Orthanc), instead of archives
-     * containing a human-readable hierarchy of folders (as generated
-     * by the route "/studies/{id}/archive").
-     **/
-    "DownloadDicomDir": false,
-    /**
-     * By setting option "InstitutionLogo" to an URL containing an
-     * image, this logo will be displayed at the bottom-left of the
-     * Stone Web viewer.
-     **/
-    "InstitutionLogo": "",
-    /**
-     * Whether to display the info panel at startup. Allowed values:
-     * "Always", "Never", "User". With "User", the user can decide to
-     * show or not the info panel in the user preferences panel (this
-     * is implemented using a cookie). (New in Stone Web viewer 2.4)
-     **/
-    "ShowInfoPanelAtStartup": "Never",
-    /**
-     * Whether to give access to the user preferences window. (New in
-     * Stone Web viewer 2.4)
-     **/
-    "ShowUserPreferencesButton": true,
-    /**
-     * Display a "not for diagnostic usage" disclaimer above the list
-     * of studies/series. (New in Stone Web viewer 2.4)
-     **/
-    "ShowNotForDiagnosticUsageDisclaimer": false
-  },
-  
-  "DicomWeb": {
-    "Enable": true,
-    "Root": "/dicom-web/",
-    "PublicRoot": "/dicom-web/",
-    "EnableWado": true,
-    "WadoRoot": "/wado",
-    "Ssl": false,
-    "Servers": {
-      "main": [
-        "http://pacs.mylabctg.com:8042/dicom-web/"
-      ]
-    },
-    "QidoCaseSensitive": true,
-    "MetadataWorkerThreadsCount": 10,
-    "EnableMetadataCache": true,
-    "StudiesMetadata": "Full",
-    "SeriesMetadata": "Full"
-  },
-  
-  "OrthancExplorer2": {
-    "Enable": true,
-    "IsDefaultOrthancUI": true
-  },
-  
-  "PostgreSQL": {
-    "EnableIndex": true,
-    "EnableStorage": false, // DICOM files are stored in the Orthanc container in /var/lib/orthanc/db/
-    "Host": "postgres", // the name of the PostgreSQL container
-    "Port": 5432,
-    "Database": "orthanc", // default database name in PostgreSQL container (no need to create it)
-    "Username": "postgres", // default user name in PostgreSQL container (no need to create it)
-    "Password": "password"
   }
 }

config/orthanc/postgresql.json

@@ -0,0 +1,11 @@
+{
+  "PostgreSQL": {
+    "EnableIndex": true,
+    "EnableStorage": false,
+    "Host": "postgres",
+    "Port": 5432,
+    "Database": "orthanc",
+    "Username": "postgres",
+    "Password": "password"
+  }
+}

config/orthanc/registered-users.json

@@ -0,0 +1,6 @@
+{
+  "AuthenticationEnabled": false,
+  "RegisteredUsers": {
+    "blackfish": "letmein"
+  }
+}

config/orthanc/stone.json

@@ -0,0 +1,20 @@
+{
+  "StoneWebViewer": {
+    "DateFormat": "DD/MM/YYYY",
+    "PrintEnabled": false,
+    "CombinedToolEnabled": true,
+    "CombinedToolBehaviour": {
+      "LeftMouseButton": "Windowing",
+      "MiddleMouseButton": "Pan",
+      "RightMouseButton": "Zoom"
+    },
+    "DownloadAsJpegEnabled": false,
+    "DownloadStudyEnabled": false,
+    "DownloadDicomDir": false,
+    "InstitutionLogo": "",
+    "ShowInfoPanelAtStartup": "Never",
+    "ShowUserPreferencesButton": true,
+    "ShowNotForDiagnosticUsageDisclaimer": false,
+    "DicomCacheSize": 256
+  }
+}

config/orthanc/webviewer.json

@@ -0,0 +1,7 @@
+{
+  "WebViewer": {
+    "CachePath": "WebViewerCache",
+    "CacheSize": 128,
+    "Threads": 4
+  }
+}

config/orthanc_ohif.js

@@ -1,256 +0,0 @@
-/**
- * SPDX-FileCopyrightText: 2023-2024 Sebastien Jodogne, UCLouvain, Belgium,
- * and 2018-2024 Open Health Imaging Foundation
- * SPDX-License-Identifier: MIT
- */
-
-window.config = {
-  extensions: [],
-  modes: [],
-  customizationService: {
-    // Shows a custom route -access via http://localhost:3000/custom
-    // helloPage: '@ohif/extension-default.customizationModule.helloPage',
-  },
-
-  showStudyList: false,
-  investigationalUseDialog: {
-    option: 'never',
-  },
-
-  whiteLabeling: {
-    /* Used to replace the default Logo */
-    createLogoComponentFn: function (React) {
-      return React.createElement("a", {
-        target: "_self",
-        rel: "noopener noreferrer",
-        className: "header-brand",
-        href: "/",
-        style: {
-          display: "block",
-          background: "url(logo.png)",
-          backgroundSize: "contain",
-          backgroundRepeat: "no-repeat",
-          width: "200px",
-        },
-      });
-    },
-  },
-
-  customizationService: {
-    cornerstoneOverlayTopLeft: {
-      id: 'cornerstoneOverlayTopLeft',
-      items: [
-        {
-          id: 'WindowLevel',
-          customizationType: 'ohif.overlayItem.windowLevel',
-        },
-        {
-          id: 'PatientName',
-          customizationType: 'ohif.overlayItem',
-          label: 'Pt:',
-          color: 'white',
-          condition: ({ instance }) =>
-            instance &&
-            instance.PatientName &&
-            instance.PatientName.Alphabetic,
-          contentF: ({ instance, formatters: { formatPN } }) => {
-            if (instance && instance.PatientName && instance.PatientName.Alphabetic) {
-              return formatPN(instance.PatientName.Alphabetic) + ' ' + (instance.PatientSex ? '(' + instance.PatientSex + ')' : '');
-            } else {
-              return 'N/A';
-            }
-          },
-        },
-        {
-          id: 'PatientAge',
-          customizationType: 'ohif.overlayItem',
-          label: 'Age:',
-          color: 'white',
-          title: "Patient's Age",
-          condition: ({ instance }) => instance && instance.PatientAge,
-          contentF: ({ instance }) => instance.PatientAge,
-        },
-        {
-          id: 'ID',
-          customizationType: 'ohif.overlayItem',
-          label: 'ID:',
-          color: 'white',
-          title: 'Patient PID',
-          condition: ({ instance }) => instance && instance.PatientID,
-          contentF: ({ instance }) => instance.PatientID,
-        },
-      ],
-    },
-  },
-
-  // some windows systems have issues with more than 3 web workers
-  maxNumberOfWebWorkers: 3,
-  // below flag is for performance reasons, but it might not work for all servers
-  omitQuotationForMultipartRequest: true,
-  showWarningMessageForCrossOrigin: true,
-  showCPUFallbackMessage: true,
-  showLoadingIndicator: true,
-  strictZSpacingForVolumeViewport: true,
-  maxNumRequests: {
-    interaction: 100,
-    thumbnail: 75,
-    // Prefetch number is dependent on the http protocol. For http 2 or
-    // above, the number of requests can be go a lot higher.
-    prefetch: 25,
-  },
-  // filterQueryParam: false,
-  httpErrorHandler: error => {
-    // This is 429 when rejected from the public idc sandbox too often.
-    if (error.status) {
-      console.warn(error.status);
-    } else {
-      console.warn(error);
-    }
-  },
-  hotkeys: [
-    {
-      commandName: 'incrementActiveViewport',
-      label: 'Next Viewport',
-      keys: ['right'],
-    },
-    {
-      commandName: 'decrementActiveViewport',
-      label: 'Previous Viewport',
-      keys: ['left'],
-    },
-    { commandName: 'rotateViewportCW', label: 'Rotate Right', keys: ['r'] },
-    { commandName: 'rotateViewportCCW', label: 'Rotate Left', keys: ['l'] },
-    { commandName: 'invertViewport', label: 'Invert', keys: ['i'] },
-    {
-      commandName: 'flipViewportHorizontal',
-      label: 'Flip Horizontally',
-      keys: ['h'],
-    },
-    {
-      commandName: 'flipViewportVertical',
-      label: 'Flip Vertically',
-      keys: ['v'],
-    },
-    { commandName: 'scaleUpViewport', label: 'Zoom In', keys: ['+'] },
-    { commandName: 'scaleDownViewport', label: 'Zoom Out', keys: ['-'] },
-    { commandName: 'fitViewportToWindow', label: 'Zoom to Fit', keys: ['='] },
-    { commandName: 'resetViewport', label: 'Reset', keys: ['space'] },
-    { commandName: 'nextImage', label: 'Next Image', keys: ['down'] },
-    { commandName: 'previousImage', label: 'Previous Image', keys: ['up'] },
-    // {
-    //   commandName: 'previousViewportDisplaySet',
-    //   label: 'Previous Series',
-    //   keys: ['pagedown'],
-    // },
-    // {
-    //   commandName: 'nextViewportDisplaySet',
-    //   label: 'Next Series',
-    //   keys: ['pageup'],
-    // },
-    {
-      commandName: 'setToolActive',
-      commandOptions: { toolName: 'Zoom' },
-      label: 'Zoom',
-      keys: ['z'],
-    },
-    // ~ Window level presets
-    {
-      commandName: 'windowLevelPreset1',
-      label: 'W/L Preset 1',
-      keys: ['1'],
-    },
-    {
-      commandName: 'windowLevelPreset2',
-      label: 'W/L Preset 2',
-      keys: ['2'],
-    },
-    {
-      commandName: 'windowLevelPreset3',
-      label: 'W/L Preset 3',
-      keys: ['3'],
-    },
-    {
-      commandName: 'windowLevelPreset4',
-      label: 'W/L Preset 4',
-      keys: ['4'],
-    },
-    {
-      commandName: 'windowLevelPreset5',
-      label: 'W/L Preset 5',
-      keys: ['5'],
-    },
-    {
-      commandName: 'windowLevelPreset6',
-      label: 'W/L Preset 6',
-      keys: ['6'],
-    },
-    {
-      commandName: 'windowLevelPreset7',
-      label: 'W/L Preset 7',
-      keys: ['7'],
-    },
-    {
-      commandName: 'windowLevelPreset8',
-      label: 'W/L Preset 8',
-      keys: ['8'],
-    },
-    {
-      commandName: 'windowLevelPreset9',
-      label: 'W/L Preset 9',
-      keys: ['9'],
-    },
-  ],
-};
-
-/**
- * SPDX-FileCopyrightText: 2023-2024 Sebastien Jodogne, UCLouvain, Belgium,
- * and 2018-2024 Open Health Imaging Foundation
- * SPDX-License-Identifier: MIT
- */
-
-window.config.routerBasename = '/ohif/';
-
-if (true) {
-  window.config.dataSources = [
-    {
-      friendlyName: 'Orthanc DICOMweb',
-      namespace: '@ohif/extension-default.dataSourcesModule.dicomweb',
-      sourceName: 'dicomweb',
-      configuration: {
-        name: 'orthanc',
-
-        wadoUriRoot: '../dicom-web',
-        qidoRoot: '../dicom-web',
-        wadoRoot: '../dicom-web',
-
-        qidoSupportsIncludeField: false,
-        supportsReject: false,
-        imageRendering: 'wadors',
-        thumbnailRendering: 'wadors',
-        enableStudyLazyLoad: true,
-        supportsFuzzyMatching: false,
-        supportsWildcard: true,
-        staticWado: true,
-        singlepart: 'bulkdata,pdf,video',
-        acceptHeader: ['multipart/related; type=application/octet-stream; transfer-syntax=*']
-      }
-    }
-  ];
-
-  window.config.defaultDataSourceName = 'dicomweb';
-
-} else {
-  window.config.showStudyList = false;
-  window.config.dataSources = [
-    {
-      friendlyName: 'Orthanc DICOM JSON',
-      namespace: '@ohif/extension-default.dataSourcesModule.dicomjson',
-      sourceName: 'dicomjson',
-      configuration: {
-        name: 'json',
-      },
-    }
-  ];
-
-  window.config.defaultDataSourceName = 'dicomjson';
-}

docker-compose.yml

@@ -1,88 +1,158 @@
 services:
-
   postgres:
-    image: postgres:17
+    image: postgres:alpine
     container_name: postgres
-    networks:
-      - pacs
-    volumes:
-      - ${POSTGRES_DATA_MNT}:${PGDATA}
-    environment:
-      - PGPASSWORD='secret'
-      - POSTGRES_USER=${POSTGRES_USER}
-      - POSTGRES_PASSWORD=${POSTGRES_PASSWORD}
-      - POSTGRES_DB=${POSTGRES_DB}
-      - PGDATA=${PGDATA}
-      - PGTZ=${PGTZ}
-    healthcheck:
-      test: [ "CMD", "pg_isready", "-q", "-d", "${DB_DATABASE}", "-U", "${DB_USERNAME}" ]
-      retries: 3
-      timeout: 5s
-
-  pgadmin:
-    depends_on:
-      - postgres
-    container_name: pgadmin
-    image: dpage/pgadmin4
-    restart: unless-stopped
-    environment:
-      PGADMIN_DEFAULT_EMAIL: admin@blackfish.dev
-      PGADMIN_DEFAULT_PASSWORD: password
+    profiles: [main, extra]
     ports:
-      - 5050:88
+      - "5432:5432"
+    networks:
+      pacs:
+        aliases:
+          - postgres
+    environment:
+      PGPASSWORD: ${PGPASSWORD}
+      POSTGRES_USER: ${POSTGRES_USER}
+      POSTGRES_PASSWORD: ${POSTGRES_PASSWORD}
+      POSTGRES_DB: ${POSTGRES_DB}
+      PGDATA: ${PGDATA}
+      PGTZ: ${PGTZ}
+      POSTGRES_HOST_AUTH_METHOD: "trust"
+    volumes:
+      - ${POSTGRES_DATA_MNT}:${PGDATA}:Z
+    healthcheck:
+      test: ["CMD-SHELL", "pg_isready -d $${POSTGRES_DB} -U $${POSTGRES_USER}"]
+      start_period: 20s
+      interval: 30s
+      retries: 5
+      timeout: 5s
+    restart: unless-stopped
 
   orthanc:
     container_name: orthanc
-    image: jodogne/orthanc-plugins
+    profiles: [main, extra]
+    image: orthancteam/orthanc
     ports:
-      - 8042:8042
-      - 4242:4242
+      - "8042:8042"
+      - "4242:4242"
     volumes:
-      # configuration file
-      - ${ORTHANC_CONFIG:-./config/orthanc.json}:/etc/orthanc/orthanc.json:ro
-      # storage volume for raw dicoms
-      - ${ORTHANC_DB_MNT:-./volumes/orthanc_db}:/var/lib/orthanc/db
-      - ${ORTHANC_OHIF:-./config/orthanc_ohif.js}:/usr/local/share/orthanc/ohif.js:ro
-      - ${ORTHANC_LOG:-./volumes/orthanc_logs}:/etc/orthanc/logs
+      - ${ORTHANC_CONFIG:-./config/orthanc}:/etc/orthanc/:ro
+      - ${ORTHANC_DB_MNT:-./volumes/orthanc_db}:/var/lib/orthanc/db:Z
+      - ${ORTHANC_OHIF:-./config/ohif/ohif.js}:/usr/local/share/orthanc/ohif.js:ro
+      - ${ORTHANC_LOG:-./volumes/orthanc_logs}:/var/log/orthanc
+    env_file:
+      - orthanc.env
     environment:
-      VERBOSE_ENABLED: "true"
-      VERBOSE_STARTUP: "true"
-      DICOM_WEB_PLUGIN_ENABLED: "true"
-      OHIF_PLUGIN_ENABLED: "true"
-      VOLVIEW_PLUGIN_ENABLED: "true"
-    restart: always
+      ORTHANC__DICOM_AET: "${ORTHANC_AET}"
+      ORTHANC__POSTGRESQL__HOST: "${POSTGRES_HOST}"
+    restart: unless-stopped
     networks:
-      - pacs
+      pacs:
+        aliases:
+          - orthanc
     depends_on:
       - postgres
 
   ohif:
     container_name: ohif
-    image: ohif/viewer
+    profiles: [main, extra]
+    image: ohif/app:v3.9.2
     ports:
-      - 3000:80
+      - "3000:80"
     environment:
-      - APP_CONFIG:/usr/share/nginx/html/app-config.js
+      APP_CONFIG: /usr/share/nginx/html/app-config.js
     volumes:
       - ${NGINX_DEFAULT_CONF}:/etc/nginx/conf.d/default.conf:ro
-      - ${VIEWER_CONFIG}:/usr/share/nginx/html/app-config.js:ro
-      - ./logo.png:/usr/share/nginx/html/logo.png:ro
-    restart: always
+      - ${NGINX_OHIF_CONF}:/etc/nginx/enabled-sites/ohif.conf:ro
+      - ${OHIF_CONFIG}:/usr/share/nginx/html/app-config.js:ro
+      - ${OHIF_LOGO}:/usr/share/nginx/html/logo.png:ro
+    restart: unless-stopped
+    depends_on:
+      - orthanc
     networks:
-      - pacs
+      pacs:
+        aliases:
+          - ohif
 
   meddream:
     image: meddream/dicom-viewer:8.5.0
-    restart: always
+    profiles: [extra]
+    container_name: meddream
+    restart: unless-stopped
     ports:
       - "80:8080"
+    depends_on:
+      - orthanc
+      - postgres
     networks:
-      - pacs
+      pacs:
+        aliases:
+          - meddream
     volumes:
       - ./config/meddream/application.properties:/opt/meddream/application.properties:ro
       #- ./config/meddream/license:/opt/meddream/license:ro
       - ./config/meddream/system.json:/opt/meddream/sys/settings/system.json:ro
 
+  orthanctoolsjs:
+    profiles: [extra]
+    image: salimkanoun/orthanctoolsjs
+    restart: unless-stopped
+    ports:
+      - "4000:4000"
+    volumes:
+      - ${ORTHANC_TOOLS_MNT:-./volumes/orthanc_tools}:/OrthancToolsJs/data
+    environment:
+      TZ: "${TZ}"
+      ORTHANC_ADDRESS: "http://orthanc"
+      ORTHANC_PORT: "8042"
+      ORTHANC_USERNAME: "${ORTHANC_USERNAME}"
+      ORTHANC_PASSWORD: "${ORTHANC_PASSWORD}"
+      REDIS_HOST: "redis"
+      REDIS_PORT: "6379"
+      REDIS_PASSWORD: ""
+      DB_USERNAME: "${POSTGRES_USER}"
+      DB_PASSWORD: "${POSTGRES_PASSWORD}"
+      DB_HOST: "${POSTGRES_HOST}"
+      DB_PORT: ${POSTGRES_PORT}
+      DB_NAME: ${POSTGRES_DB}
+      DOMAIN_PROTOCOL: "http"
+      DOMAIN_ADDRESS: "localhost:4000"
+    depends_on:
+      - redis
+      - orthanc
+      - postgres
+    networks:
+      pacs:
+        aliases:
+          - orthanctoolsjs
+
+  redis:
+    profiles: [extra]
+    image: redis:alpine
+    networks:
+      pacs:
+        aliases:
+          - redis
+
+  pgadmin:
+    container_name: pgadmin
+    profiles: [extra]
+    image: dpage/pgadmin4:latest
+    restart: unless-stopped
+    environment:
+      PGADMIN_DEFAULT_EMAIL: ${PGADMIN_MAIL}
+      PGADMIN_DEFAULT_PASSWORD: ${PGADMIN_PASS}
+      PGADMIN_CONFIG_SERVER_MODE: ${PGADMIN_SERVER}
+      PGADMIN_CONFIG_MASTER_PASSWORD_REQUIRED: ${PGADMIN_MASTER_PASS}
+      PGADMIN_LISTEN_PORT: ${PGADMIN_PORT}
+    ports:
+      - "${PGADMIN_PORT}:${PGADMIN_PORT}"
+    depends_on:
+      - postgres
+    networks:
+      pacs:
+        aliases:
+          - pgadmin
+
 networks:
   pacs:
     external: true

orthanc.env

@@ -0,0 +1,35 @@
+VERBOSE_STARTUP=true
+#VERBOSE_ENABLED=true
+
+ORTHANC__POSTGRESQL__HOST=orthanc-db
+ORTHANC__POSTGRESQL__TRANSACTION_MODE=ReadCommitted
+ORTHANC__POSTGRESQL__INDEX_CONNECTIONS_COUNT=10
+
+ORTHANC__OVERWRITE_INSTANCES=true
+#ORTHANC__DICOM_MODALITIES={"pacs": ["PACS", "pacs", 4242]}
+ORTHANC__DICOM_WEB__SERVERS={"pacs": ["http://orthanc:8042/dicom-web/"]}
+ORTHANC__DICOM_WEB__SERIES_METADATA="Full"
+ORTHANC__DICOM_WEB__STUDIES_METADATA="Full"
+ORTHANC__DICOM_WEB__METADATA_WORKER_THREADS_COUNT=4
+
+ORTHANC__STONE_WEB_VIEWER__DATE_FORMAT: "DD/MM/YYYY"
+ORTHANC__AUTHENTICATION_ENABLED: "false"
+
+ORTHANC__NAME="BlackFish"
+POSTGRESQL_PLUGIN_ENABLED=true
+LOGDIR="/var/log/orthanc"
+VERBOSE_ENABLED=true
+VERBOSE_STARTUP=true
+DICOM_WEB_PLUGIN_ENABLED=true
+OHIF_PLUGIN_ENABLED=true
+VOLVIEW_PLUGIN_ENABLED=true
+ORTHANC_WEB_VIEWER_PLUGIN_ENABLED=true
+STONE_WEB_VIEWER_PLUGIN_ENABLED=true
+HOUSEKEEPER_PLUGIN_ENABLED=true
+ORTHANC_EXPLORER_2_ENABLED=true
+#PYTHON_PLUGIN_ENABLED=true
+#TRANSFERS_PLUGIN_ENABLED=true
+#WORKLISTS_PLUGIN_ENABLED=true
+#MULTITENANT_DICOM_PLUGIN_ENABLED=true
+#INDEXER_PLUGIN_ENABLED=true
+#OSIMIS_WEB_VIEWER1_PLUGIN_ENABLED=true